OSHIMA Taku 大島拓

Researcher Number	50346318
Other IDs
External Links
Affiliation (Current)	2022: 富山県立大学, 工学部, 准教授
Affiliation (based on the past Project Information) *help	2017 – 2021: 富山県立大学, 工学部, 准教授 2011 – 2016: 奈良先端科学技術大学院大学, バイオサイエンス研究科, 助教 2010: 奈良先端科学技術大学院大学, 情報科学究科, 助教 2007 – 2010: 奈良先端科学技術大学院大学, 情報科学研究科, 助教 2004 – 2006: Nara Institute of Science and Technology, Assistant Professor, 情報科学研究科, 助手 2003 – 2004: 奈良先端科学技術大学院大学, 遺伝子教育研究センター, 助手 2003: 奈良先端科学技術大学院大学, 遺伝子教育センター, 助手
Review Section/Research Field	Principal Investigator Applied microbiology / 基礎ゲノム科学 Except Principal Investigator Biological Sciences / Basic Section 43050:Genome biology-related / 基礎ゲノム科学 / Genome biology / Science and Engineering / Basic Section 57080:Social dentistry-related
Keywords	Principal Investigator 大腸菌 / 核様体 / H-NS / マイクロアレイ / 転写ネットワーク / 金属ストレス / 細菌 / 微生物遺伝・育種 / 転写制御 / サイレンシング … More Except Principal Investigator 大腸菌 / 枯草菌 / 転写制御 / ChIP-chip解析 / チミン飢餓死 / 細菌細胞 / 必須タンパク質 / タンパク質複合体 / システム生物学 / 遺伝子発現制御 / タイリングチップ / 細胞システム / ゲノム進化・再編 / ChIP-chip / 転写制御ネットワーク / ChAP-chip / Fur / H-NS / Zur / 転写ネットワーク / 病原性大腸菌 / 転写制御システム / ChIP-seq解析 / ゲノム構築 / 細菌ゲノム / 核様体 / シュードモナス / GeF-seq / 2成分制御系 / 情報伝達 / マイクロアレイ / クロストーク / ヒスチジンキナーゼ / レスポンスレギュレーター / リン酸化 / ストレス応答 / Escherichia coli / two component regulatory system / signal transduction / transcriptional regulation / microarray / cross talk / 冥王代 / 生命の起源 / 生命の誕生場 / 蛇紋岩熱水系 / 未知未培養微生物 / メタゲノム / 嫌気性微生物 / 原始エネルギー代謝 / OD1 / エネルギー代謝 / Wood-Ljungdahl 経路 / 人工生命系 / ATPase / 特殊環境微生物 / 生命進化 / 原始生命体 / 細菌 / 古細菌 / アルカリ環境 / 共生 / 微生物初期進化 / ミニマムゲノム / ゲノム解析 / 化学進化 / 難培養性微生物 / 初期エネルギー代謝 / 人工生命体 / 原始地球 / ゲノムインフォマティックス / 難培養微生物 / 独立栄養微生物 / ゲノム複製 / DNA複製フォーク / 複製遅延 / ゲノム不安定性 / ヒストン様タンパク質 / 鋳型スイッチ / 染色体高次構造 / 複製フォーク / 複製遅延領域 / 複製と転写の衝突 / DNA複製阻害 / プログラム複製阻害 / 人工染色体 / 染色体構造解析 / ゲノム安定性 / 口腔微生物叢 / マイクロバイオーム / 音波 Less

Roles and their molecular mechanisms of replication barrier zones programmed on chromosome for genome stability maintenance
- Principal Investigator
  
  秋山昌広
- Project Period (FY)
  2021 – 2023
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43050:Genome biology-related
- Research Institution
  Nara Institute of Science and Technology
Development of a safe method to control the oral microbiota that varies among individuals
- Principal Investigator
  
  円山由郷
- Project Period (FY)
  2021 – 2024
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 57080:Social dentistry-related
- Research Institution
  Osaka Dental University
A role of genome dynamics in dramatic cell death caused by thymine synthesis inhibitors
- Principal Investigator
  
  秋山昌広
- Project Period (FY)
  2018 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43050:Genome biology-related
- Research Institution
  Nara Institute of Science and Technology
The role of nucleoid structure in bacterial transcriptional regulationPrincipal Investigator
- Principal Investigator
  
  Oshima Taku
- Project Period (FY)
  2014 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Applied microbiology
- Research Institution
  Nara Institute of Science and Technology
Hadean Eon Microbiome
- Principal Investigator
  
  KAMAGATA YOICHI
- Project Period (FY)
  2014 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Science and Engineering
- Research Institution
  National Institute of Advanced Industrial Science and Technology
Characterization and comparison of nucleoid proteins in different bacterial species
- Principal Investigator
  
  OGASAWARA Naotake
- Project Period (FY)
  2011 – 2013
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  Genome biology
- Research Institution
  Nara Institute of Science and Technology
The analysis of the de-silencing mechanism in E. coliPrincipal Investigator
- Principal Investigator
  
  OSHIMA Taku
- Project Period (FY)
  2011 – 2013
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Applied microbiology
- Research Institution
  Nara Institute of Science and Technology
ChIP-chip analysis of diversity of binding sites of transcriptional factors in thres E.coli strains
- Principal Investigator
  
  OGASAWARA Naotake
- Project Period (FY)
  2008 – 2010
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  基礎ゲノム科学
- Research Institution
  Nara Institute of Science and Technology
Fundamental Network of Genes and Proteins for Bacterial Cell Growth
- Principal Investigator
  
  OGASAWARA Naotake
- Project Period (FY)
  2005 – 2009
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Nara Institute of Science and Technology
マイクロアレイによる大腸菌転写ネットワークの解析Principal Investigator
- Principal Investigator
  
  大島拓
- Project Period (FY)
  2003 – 2004
- Research Category
  
  Grant-in-Aid for Young Scientists (B)
- Research Field
  
  基礎ゲノム科学
- Research Institution
  Nara Institute of Science and Technology
Comprehensive analysis of transcriptional regulatory network in Escherichia coli
- Principal Investigator
  
  AIBA Hirofumi
- Project Period (FY)
  2003 – 2004
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Nagoya University

[Book] 高精度で結合領域を決定するGeF-seq、高精度で結合領域を決定するGeF-seq, 次世代シークエンス解析スタンダード:NGSのポテンシャルを活かしきるWET&DRY2014
- Author(s)
  大島拓、石川周、Chumsakul Onuma、中村健介
- Total Pages
  401
- Publisher
  羊土社
- Data Source
  KAKENHI-PROJECT-26450090
[Book] 細胞工学(タイリングチップを用いた細菌ゲノム機能研究の可能性, 25)2006
- Author(s)
  大島拓、石川周、黒川顕、小笠原直毅
- Publisher
  秀潤社
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Reconsidering plasmid maintenance factors for computational plasmid design2019
- Author(s)
  Yano H, Shintani M, Tomita M, Suzuki H, and Oshima T
- Journal Title
  
  Computational and Structural Biotechnology Journal
  
  Volume: 17 Pages: 70-81
- DOI
  10.1016/j.csbj.2018.12.001
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K06357, KAKENHI-PLANNED-26106004, KAKENHI-PROJECT-17H04666
[Journal Article] Small RNA Esr41 inversely regulates expression of LEE and flagellar genes in enterohaemorrhagic Escherichia coli2018
- Author(s)
  Sudo Naoki、Soma Akiko、Iyoda Sunao、Oshima Taku、Ohto Yui、Saito Kenta、Sekine Yasuhiko
- Journal Title
  
  Microbiology
  
  Volume: 164 Pages: 821-834
- DOI
  10.1099/mic.0.000652
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15K08486, KAKENHI-PLANNED-26106004
[Journal Article] Essential cellular modules for the proliferation of the primitive cell2018
- Author(s)
  Higashi Koichi、Kawai Yoshikazu、Baba Tomoya、Kurokawa Ken、Oshima Taku
- Journal Title
  
  Geoscience Frontiers
  
  Volume: 9 Pages: 1155-1161
- DOI
  10.1016/j.gsf.2016.11.013
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-26106004
[Journal Article] GeF-seq: A Simple Procedure for Base Pair Resolution ChIP-seq2018
- Author(s)
  Chumsakul Onuma、Nakamura Kensuke、Ishikawa Shu、Oshima Taku
- Journal Title
  
  Methods Mol Biol
  
  Volume: 1837 Pages: 33-47
- DOI
  10.1007/978-1-4939-8675-0_3
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-26106004
[Journal Article] Enlargement of Deinococcus grandis spheroplasts requires Mg2+ or Ca2+2018
- Author(s)
  Koki Nishino, Yusuke Morita, Sawako Takahashi, Mai Okumura, Shusaku Shiratani, Kousuke Umemura, Issay Narumi, Chie Kondo, Ryosuke Ochiai, Taku Oshima, Hiromi Nishida
- Journal Title
  
  Microbiology
  
  Volume: 164 Pages: 1361-1371
- DOI
  10.1099/mic.0.000716
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-17K07730, KAKENHI-PLANNED-26106004, KAKENHI-PROJECT-18J20258
[Journal Article] Genome-Wide Analysis of ResD, NsrR, and Fur Binding in Bacillus subtilis during Anaerobic Fermentative Growth by In Vivo Footprinting2017
- Author(s)
  Chumsakul O, Anantsri DP, Quirke T, Oshima T, Nakamura K, Ishikawa S and Nakano MM
- Journal Title
  
  Journal of Bacteriology
  
  Volume: 199
- DOI
  10.1128/jb.00086-17
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-26106004
[Journal Article] Characterization of H-box region mutants of WalK inert to the action of waldiomycin in <i>Bacillus subtilis</i>2017
- Author(s)
  A. Kato, S. Ueda, T. Oshima, Y. Inukai, T. Okajima, M. Igarashi, Y. Eguchi and R. Utsumi
- Journal Title
  
  The Journal of General and Applied Microbiology
  
  Volume: 63 Issue: 4 Pages: 212-221
- DOI
  10.2323/jgam.2016.10.007
- NAID
  130006067744
- ISSN
  0022-1260, 1349-8037
- Language
  English
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16K07681, KAKENHI-PLANNED-26106004
[Journal Article] Replication fork progression is paused in two large chromosomal zones flanking the DNA replication origin in Escherichia coli2016
- Author(s)
  Masahiro Tatsumi Akiyama, Taku Oshima, Onuma Chumsakul, Shu Ishikawa and Hisaji Mak
- Journal Title
  
  Genes to Cells
  
  Volume: 21 Pages: 907-914
- DOI
  10.1111/gtc.12388
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-25440009, KAKENHI-PROJECT-26450090
[Journal Article] H-NS Facilitates Sequence Diversification of Horizontally Transferred DNAs during Their Integration in Host Chromosomes.2016
- Author(s)
  Higashi K., Tobe T., Kanai A., Uyar E., Ishikawa S., Suzuki Y., Ogasawara N., Kurokawa K., and Oshima T
- Journal Title
  
  PLoS Genetics
  
  Volume: 12
- DOI
  10.1371/journal.pgen.1005796
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-26450090, KAKENHI-PROJECT-15K16125, KAKENHI-PLANNED-26106004, KAKENHI-PROJECT-25292206
[Journal Article] Chromosomal location of the DnaA-reactivating sequence DARS2 is important to regulate timely initiation of DNA replication in E. coli.2016
- Author(s)
  Yukie Inoue, Hiroyuki Tanaka, Kazutoshi Kasho, Kazuyuki Fujimitsu, Taku Oshima, Tsutomu Katayama
- Journal Title
  
  Genes to Cells
  
  Volume: 21 Pages: 1015-1023
- DOI
  10.1111/gtc.12395
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PUBLICLY-16H00775, KAKENHI-PROJECT-26291004, KAKENHI-PROJECT-26450090, KAKENHI-PROJECT-15K18479
[Journal Article] Gene Activation through the Modulation of Nucleoid Structures by a Horizontally Transferred Regulator, Pch, in Enterohemorrhagic Escherichia coli2016
- Author(s)
  Fukui N, Oshima T, Ueda T, Ogasawara N, Tobe T.
- Journal Title
  
  PLoS One
  
  Volume: 11
- DOI
  10.1371/journal.pone.0149718
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-26450090
[Journal Article] Visualizing translocation dynamics and nascent transcript errors in paused RNA polymerases in vivo.2015
- Author(s)
  Imashimizu M., Takahashi H., Oshima T., McIntosh C., Bubunenko M., Court DL., and Kashlev M.
- Journal Title
  
  Genome Biol.
  
  Volume: 16 Pages: 98-98
- DOI
  10.1186/s13059-015-0666-5
- Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-26450090, KAKENHI-PROJECT-221S0002
[Journal Article] Transcription elongation : Heterogeneous tracking of RNA polymerase and its biological implications2014
- Author(s)
  Imashimizu M, Shimamoto N, Oshima T, Kashlev M
- Journal Title
  
  Transcription
  
  Volume: 5
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Transcription elongation: Heterogeneous tracking of RNA polymerase and its biological implications.2014
- Author(s)
  Masahiko Imashimizu, Nobuo Shimamoto, Taku Oshima, Mikhail Kashlev
- Journal Title
  
  Transcription
  
  Volume: 印刷中
- DOI
  10.4161/trns.28285
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Characterization of the YdeO Regulon in Escherichia coli2014
- Author(s)
  Yamanaka, Y., Oshima, T., Ishihama, A. and Yamamoto, K.
- Journal Title
  
  PLoS One
  
  Volume: 9
- DOI
  10.1371/journal.pone.0111962
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-25430173, KAKENHI-PROJECT-26450090
[Journal Article] Timely binding of IHF and Fis to DARS2 regulates ATP–DnaA production and replication initiation2014
- Author(s)
  Kazutoshi Kasho, Fujimitsu Kazuyuki, Toshihiro Matoba, Taku Oshima, Tsutomu Katayama
- Journal Title
  
  Nucleic Acids Res.
  
  Volume: 42 Pages: 13134-13149
- DOI
  10.1093/nar/gku1051
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PROJECT-26291004, KAKENHI-PROJECT-26450090
[Journal Article] Functions of the Hha and YdgT Proteins in Transcriptional Silencing by the Nucleoid Proteins, H-NS and StpA, in Escherichia coli2013
- Author(s)
  Ueda T, Takahashi H, Uyar E, Ishikawa S,　Ogasawara N, Oshima T.
- Journal Title
  
  DNA Research
  
  Volume: Epub ahead of print Pages: 263-71
- DOI
  10.1093/dnares/dst008
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062, KAKENHI-PROJECT-23580114, KAKENHI-PROJECT-24780072
[Journal Article] 細菌の発現制御機構をゲノムワイドに解析する(次世代シーケンサーを用いた高精度な網羅的解析の可能性)2013
- Author(s)
  大島拓、石川周
- Volume
  51
- Pages
  670-678
- NAID
  130004697205
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Direct assessment of transcription fidelity by high-resolution RNA sequencing.2013
- Author(s)
  Masahiko Imashimizu, Taku Oshima, Lucyna Lubkowska, Mikhail Kashlev
- Journal Title
  
  Nucleic Acids Res.
  
  Volume: 41 Pages: 9090-9104
- DOI
  10.1093/nar/gkt698
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] 細菌の発現制御機構をゲノムワイドに解析する（次世代シーケンサーを用いた高精度な網羅的解析の可能性）2013
- Author(s)
  大島　拓、石川　周
- Journal Title
  
  生物と科学
  
  Volume: 51 Pages: 670-678
- NAID
  130004697205
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Functions of the Hha and YdgT Proteins in Transcriptional Silencing by the Nucleoid Proteins, H-NS and StpA, in Escherichia coli2013
- Author(s)
  Takeshi Ueda, Hiroki Takahashi, Ebru Uyar, Ishikawa S, Ogasawara N, Oshima T.
- Journal Title
  
  DNA Res
  
  Volume: 20 Pages: 263-271
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23580114
[Journal Article] Functions of the Hha and YdgT Proteins in Transcriptional Silencing by the Nucleoid Proteins, H-NS and StpA, in Escherichia coli2013
- Author(s)
  Takeshi Ueda, Hiroki Takahashi, Ebru Uyar, Ishikawa S, Ogasawara N, Oshima T
- Journal Title
  
  DNA Res
  
  Volume: 20 Pages: 263-271
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Direct assessment of transcription fidelity by high-resolution RNA sequencing2013
- Author(s)
  Imashimizu M., Oshima T., Lubkowska L., Kashlev M
- Journal Title
  
  Nucleic Acids Res
  
  Volume: 41 Pages: 9090-9104
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Regulation of chromosomal replication initiation by oriC-proximal DnaA-box clusters in Bacillus subtilis2012
- Author(s)
  Okumura H, Yoshimura M, Ueki M, Oshima T, Ogasawara N, Shu Ishikawa
- Journal Title
  
  Nucleic Acids Res
  
  Volume: 40 Pages: 220-234
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23241062
[Journal Article] Genome-wide binding profiles of the Bacillus subtilis transition state regulator AbrB and its homolog Abh reveals their interactive role in transcriptional regulation.2011
- Author(s)
  Chumsakul O, Takahashi H, Oshima T, Hishimoto T, Kanaya S, Ogasawara N, Ishikawa S.
- Journal Title
  
  Nucleic Acids Res 39
  
  Pages: 414-428
- Data Source
  KAKENHI-PROJECT-20241045
[Journal Article] RNA polymerase trafficking in Bacillus subtilis cells.2010
- Author(s)
  Ishikawa S, Oshima T, Kurokawa K, Kusuya Y, Ogasawara N.
- Journal Title
  
  J Bacteriol 192
  
  Pages: 5778-5787
- Data Source
  KAKENHI-PROJECT-20241045
[Journal Article] J Bacteriol2009
- Author(s)
  Uyar E, Kurokawa K, Yoshimura M, Ishikawa S, Ogasawara N, Oshima T.
- Journal Title
  
  Differential binding profiles of StpA in wild-type and h-ns mutant cells : a comparative analysis of cooperative partners by chromatin immunoprecipitation-microarray analysis. 191
  
  Pages: 2388-2391
- Data Source
  KAKENHI-PROJECT-20241045
[Journal Article] Noc protein binds to specific DNA sequences to coordinate cell division with chromosome segregation.2009
- Author(s)
  Wu LJ, Ishikawa S, Kawai Y, Oshima T, Ogasawara N, Errington J.
- Journal Title
  
  EMBO J 28
  
  Pages: 1940-1952
- Data Source
  KAKENHI-PROJECT-20241045
[Journal Article] Noc protein binds to specific DNA sequences to coordinate cell division with chromosome segregation.2009
- Author(s)
  Wu, L.J., Ishikawa, S., Kawai, Y., Oshima, T., Ogasawara, N., Errington, J.
- Journal Title
  
  EMBO J 28
  
  Pages: 1940-1952
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Differential binding profiles of StpA in wild-type and hns mutant cells: a comparative analysis of cooperative partners by ChIP-chip analysis.2009
- Author(s)
  Uyar, E., Kurokawa, K., Yoshimura, M., Ishikawa, S., Ogasawara, N., Oshima, T.
- Journal Title
  
  J Bacteriol 191
  
  Pages: 2388-2391
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Metabolomics approach for determining growth-specific metabolites based on Fourier transform ion cyclotron resonance mass spectrometry2008
- Author(s)
  Takahashi H, Kai K, Shinbo Y, Tanaka K, Ohta D, Oshima T, Altaf-Ul-Amin M, Kurokawa K, Ogasawara N, Kanaya S.
- Journal Title
  
  Anal Bioanal Chem 391
  
  Pages: 2769-2782
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Global regulation by horizontally transferred regulators establishes the pathogenicity of Escherichia coli.2008
- Author(s)
  Abe, H., Miyahara, A., Oshima, T., Tashiro, K., Ogura, Y., Kuhara, S., Ogasawara, N., Hayashi, T., Tobe, T.
- Journal Title
  
  DNA Res 15
  
  Pages: 25-38
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Involvement of the YneS/YgiH and PlsX proteins in phospholipid biosynthesis in both Bacillus subtilis and Escherichia coli.2007
- Author(s)
  Yoshimura, M., Oshima, T., Ogasawara, N.
- Journal Title
  
  BMC Microbiol 7,69
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] The GTP-binding protein YqeH participates in biogenesis of the 30S ribosome subunit in Bacillus subtilis.2007
- Author(s)
  Loh, P.C., Morimoto, T., Matsuo, Y., Oshima, T., Ogasawara, N.
- Journal Title
  
  Gene Genet Sys 82
  
  Pages: 281-289
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Isolation and characterization of a dominant negative mutant of Bacillus subtilis GTP-binding protein, YlqF, essential for biogenesis and maintenance of the 50S ribosomal subunit.2007
- Author(s)
  Matsuo, Y., Oshima, T., Loh, P.C., Morimoto, T., Ogasawara, N.
- Journal Title
  
  J Biol Chem 282
  
  Pages: 25270-25277
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Distribution of stable DnaA-binding sites on the Bacillus subtilis genome detected using a modified ChIP-chip method.2007
- Author(s)
  Ishikawa, S., Ogura, Y., Yoshimura, M., Okumura, H., Cho, E., Kawai, Y., Kurokawa, K., Oshima, T., Ogasawara, N.
- Journal Title
  
  DNA Res 14
  
  Pages: 155-168
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Escherichia coli histone-like protein H-NS preferentially binds to horizontally acquired DNA in association with RNA polymerase.2006
- Author(s)
  Oshima, T., Ishikawa, S., Kurokawa, K., Aiba, H., Ogasawara, N.
- Journal Title
  
  DNA Res 13
  
  Pages: 141-153
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] タイリングチップを用いた細菌ゲノム機能研究の可能性2006
- Author(s)
  大島拓
- Journal Title
  
  細胞工学 25・10
  
  Pages: 1155-1160
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Escherichia coli histone-like protein H-NS preferentially binds to horizontally acquired DNA in association with RNA polymerase2006
- Author(s)
  Oshima, T.
- Journal Title
  
  DNA Res 13・4
  
  Pages: 141-153
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] The GTP-binding Protein YlqF Participates in the Late Step of 50 S Ribosomal Subunit Assembly in Bacillus subtilis.2006
- Author(s)
  Matsuo, Y., Morimoto, T., Kuwano, M., Loh, P.C., Oshima, T., Ogasawara, N.
- Journal Title
  
  J Biol Chem 281
  
  Pages: 8110-8117
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-17017026
[Journal Article] Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli.2005
- Author(s)
  Yamamoto, K., Hirao, K., Oshima, T., Aiba, H., Utsumi, R., Ishihama, A.
- Journal Title
  
  J. Biol. Chem. 280
  
  Pages: 1448-1456
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Extracting relations between promoter sequences and their strengths from microarray data.2005
- Author(s)
  Kiryu H, Oshima T, Asai K.
- Journal Title
  
  Bioinformatics. 21
  
  Pages: 1062-1068
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Analysis of hydrostatic pressure effects on transcription in Escherichia coli by DNA microarray procedure.2005
- Author(s)
  Ishii A, Oshima T, Sato T, Nakasone K, Mori H, Kato C.
- Journal Title
  
  Extremophiles. 9
  
  Pages: 65-73
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Effects of mutations in the rpoS gene on cell viability and global gene expression under nitrogen starvation in Escherichia coli.2004
- Author(s)
  Kabir MS, Sagara T, Oshima T, Kawagoe Y, Mori H, Tsunedomi R, Yamada M.
- Journal Title
  
  Microbiology. 150
  
  Pages: 2543-2553
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Signal transduction cascade between EvgA/EvgS and PhoP/PhoQ two-component systems of Escherichia coli.2004
- Author(s)
  Eguchi, Y., Okada, T., Minagawa, S., Oshima, T., Mori, H., Yamamoto, K., Ishihama, A., Utsumi, R.
- Journal Title
  
  J. Bacteriol. 186
  
  Pages: 3006-3014
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Analysis of Gene Expression in Escherichia coli in Response to Changes of Growth-Limiting Nutrient in Chemostat Cultures.2004
- Author(s)
  Hua Q, Yang C, Oshima T, Mori H, Shimizu K.
- Journal Title
  
  Appl Environ Microbiol. 70
  
  Pages: 2354-2366
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Transcriptional regulation of drug efflux genes by EvgAS, a two-component system in Escherichia coli.2003
- Author(s)
  Eguchi Y., Oshima T., Mori H., Aono R., Yamamoto, K., Ishihama A., Utsumi R.
- Journal Title
  
  Microbiology 149
  
  Pages: 2819-2828
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Genome-wide analyses revealing a signaling network of the RcsC-YojN-RcsB phosphorelay system in Escherichia coli.2003
- Author(s)
  Hagiwara, D., Sugiura, M., Oshima, T., Mori, H., Aiba, H., Yamashino, T., Mizuno, T.
- Journal Title
  
  J. Bacteriol. 185
  
  Pages: 5735-5746
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Journal Article] Identification and molecular characterization of the Mg2+ stimulon of Escherichia coli.2003
- Author(s)
  Minagawa, S.Ogasawara, H., Kato, A., Yamamoto, K., Eguchi, Y., Oshima, T., S., H., Ishihama, A., Utsumi, R.
- Journal Title
  
  J. Bacteriol. 185
  
  Pages: 3696-3702
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-15013221
[Presentation] L型大腸菌の増殖機構の解明2019
- Author(s)
  大島拓
- Organizer
  第92回日本細菌学会総会
- Invited
- Data Source
  KAKENHI-PLANNED-26106004
[Presentation] 大腸菌は、H-NSタンパク質の働きにより水平伝搬遺伝子の変異を許容する2016
- Author(s)
  大島　拓
- Organizer
  第13回21世紀大腸菌研究会
- Place of Presentation
  ホテルグリーンピア南阿蘇（熊本県阿蘇群南阿蘇村）
- Year and Date
  2016-06-02
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] H-NSが促す外来DNAの塩基配列の多様化2016
- Author(s)
  大島　拓
- Organizer
  第88回日本遺伝学会
- Place of Presentation
  日本大学国際関係学部（静岡県三島市）
- Year and Date
  2016-09-07
- Invited
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] H-NS による転写抑制を介した大腸菌ゲノムの多様性獲得機構2016
- Author(s)
  東光一、戸邉亨、石川周、鈴木穣、小笠原直毅、黒川顕、大島拓
- Organizer
  第10回日本ゲノム微生物学会年会
- Place of Presentation
  東京工業大学 (東京都目黒区)
- Year and Date
  2016-03-04
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] RNAポリメラーゼの動きをゲノムワイドに解析する、（ワークショップ：バクテリア細胞増殖プロセス研究の最前線）2016
- Author(s)
  大島　拓
- Organizer
  第89回日本細菌学会総会
- Place of Presentation
  大阪国際交流センター　(大阪府大阪市）
- Year and Date
  2016-03-23
- Invited
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] Genome Footprinting (GeF-seq)により明らかにされたIhfAおよびIhaB特異的認識配列2015
- Author(s)
  Onuma Chumsakul、中村　健介、石川　周、大島　拓
- Organizer
  第12回　21世紀大腸菌研究会
- Place of Presentation
  琵琶湖グランドホテル (滋賀県大津市）
- Year and Date
  2015-06-04
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] 細菌における外来遺伝子発現抑性機構2014
- Author(s)
  大島　拓
- Organizer
  日本農芸化学会
- Place of Presentation
  明治大学生田キャンパス（神奈川県川崎市）
- Invited
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] 細菌における外来遺伝子発現抑制機構2014
- Author(s)
  大島拓
- Organizer
  日本農芸化学会,シンポジウム「微生物ゲノム設計の時代に塩基組成の機能と進化を再考する」
- Place of Presentation
  川崎
- Year and Date
  2014-03-30
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] 細菌における外来遺伝子発現抑制機構2014
- Author(s)
  大島拓
- Organizer
  日本農芸化学会, シンポジウム「微生物ゲノム設計の時代に塩基組成の機能と進化を再考する」
- Place of Presentation
  川崎
- Year and Date
  2014-03-30
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] 細菌における外来遺伝子発現抑性機構2014
- Author(s)
  大島　拓
- Organizer
  日本農芸化学会
- Place of Presentation
  明治大学生田キャンパス（神奈川県川崎市）
- Invited
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] ゲノムワイドな解析手法により明らかになった核様体タンパク質の機能2013
- Author(s)
  大島拓
- Organizer
  日本遺伝学会第85回大会
- Place of Presentation
  横浜
- Year and Date
  2013-09-19
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] 大腸菌Hha, YdgT タンパク質による外来性遺伝子の転写抑制2013
- Author(s)
  上田剛士, 高橋弘喜, 石川周, 小笠原直毅, 大島拓
- Organizer
  第7回日本ゲノム微生物学会年会
- Place of Presentation
  長浜
- Year and Date
  2013-03-08
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] ゲノムワイドな解析手法により明らかになった核様体タンパク質の機能2013
- Author(s)
  大島拓
- Organizer
  日本遺伝学会第85回大会シンポジウム「核酸の機能制御における細菌の分子生物学からの新たな挑戦」
- Place of Presentation
  横浜
- Year and Date
  2013-09-19
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] 大腸菌Hha, YdgTタンパク質による外来性遺伝子の転写抑制2013
- Author(s)
  上田剛士,高橋弘喜,石川周,小笠原直毅、大島拓
- Organizer
  第7回日本ゲノム微生物学会年会
- Place of Presentation
  長浜
- Year and Date
  2013-03-08
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] ゲノムワイドな解析手法により明らかになった核様体タンパク質の機能2013
- Author(s)
  大島　拓
- Organizer
  日本遺伝学会
- Place of Presentation
  慶應義塾大学日吉キャンパス　（神奈川県横浜市）
- Invited
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] ゲノムワイドな解析手法により明らかになった核様体タンパク質の機能2013
- Author(s)
  大島　拓
- Organizer
  日本遺伝学会第85回大会
- Place of Presentation
  慶應義塾大学日吉キャンパス第４校舎独立館（神奈川県横浜市）
- Invited
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] 次世代シーケンサーによる細菌の発現制御機構に関する網羅解析の高精度化2013
- Author(s)
  大島　拓
- Organizer
  NGS現場の会第三回研究会
- Place of Presentation
  神戸国際会議場（兵庫県神戸市）
- Invited
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] バクテリアのサイレンシングの多様性と共通性2012
- Author(s)
  大島拓
- Organizer
  第35回日本分子生物学会年会、ワークショップ「遺伝子サイレンシング : その進化的普遍性と多様性」
- Place of Presentation
  福岡
- Year and Date
  2012-12-14
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] 次世代シーケンサを用いた網羅解析の可能性2012
- Author(s)
  大島拓
- Organizer
  第6回日本ゲノム微生物学会シンポジウム「我が国の微生物ゲノムと新型シーケンサー」
- Place of Presentation
  東京
- Year and Date
  2012-03-12
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] Comparative analysis of H-NS binding profiles suggests a role of H-NS in sequence diversification of bacterial genome2012
- Author(s)
  大島拓
- Place of Presentation
  ライデンオランダ
- Year and Date
  2012-06-20
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] バクテリアの転写サイレンシングによる外来遺伝子の発現制御2012
- Author(s)
  大島拓
- Organizer
  遺伝研研究会(単細胞生物における細胞構築と増殖制御の研究)
- Place of Presentation
  国立遺伝学研究所(三島)(招待講演)
- Year and Date
  2012-03-21
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] 次世代シーケンサを用いた網羅解析の可能性2012
- Author(s)
  大島拓
- Organizer
  第6回日本ゲノム微生物学会
- Place of Presentation
  立教大学(東京)(招待講演)
- Year and Date
  2012-03-12
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] ChIP(ChAP) method revealed many aspects of DNA binding proteins in Bacteria2010
- Author(s)
  大島拓
- Organizer
  UK RNA polymerase workshop.
- Place of Presentation
  University of Nottingham United Kingdom
- Year and Date
  2010-04-13
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] ChIP (ChAP) method revealed many aspects of DNA binding proteins in Bacteria.2010
- Author(s)
  Taku Oshima
- Organizer
  UK RNA polymerase workshop
- Place of Presentation
  Nottingham, UK
- Year and Date
  2010-04-12
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] 大腸菌O157:H7 sakaiおよびK12株のFur結合プロファイルのChIP-chip解析による比較2010
- Author(s)
  大島拓
- Organizer
  第4回日本ゲノム微生物学会年会
- Place of Presentation
  福岡
- Year and Date
  2010-03-09
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] 大腸菌O157:H7 sakaiおよびK12株のFur結合プロファイルのChIP-chip解析による比較2010
- Author(s)
  大島拓
- Organizer
  第4回日本ゲノム微生物学会年会
- Place of Presentation
  福岡
- Year and Date
  2010-03-09
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] Gene-to gene and gene-to-metabolite network analysis based on the time lag between gene and metabolite in Escherichia coli.2009
- Author(s)
  Takahashi, H., Morikawa, R., Kai, K., Ohta, D., Oshima, T., Altaf-Ul-Amin, M., Ogasawara, N., Kanaya, S.
- Organizer
  4th European Conference on Prokaryotic Genomics
- Place of Presentation
  Gottingen, Germany
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] Search of nucleoid proteins in Bacillus subtilis : comparative analysis using ChAP(ChIP)-chip analysis between in B.subtilis and E.coli.2009
- Author(s)
  大島拓
- Organizer
  第32回日本分子生物学会年会
- Place of Presentation
  横浜
- Year and Date
  2009-12-09
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] Comparative analysis of Fur binding sitesacross Escherichia coli strains.2009
- Author(s)
  Yoko Kagayama, Taku Oshima, Toru Tobe, Naotake Ogasawar
- Organizer
  第32回日本分子生物学会
- Place of Presentation
  横浜
- Year and Date
  2009-12-10
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] Search of nucleoid proteins in Bacillus subtilis : comparative analysis using ChAP (ChIP)-chip analysis between2009
- Author(s)
  B.subtilis, E.coli.Onuma Chumsakul, Ebru Uyar, Shu Ishikawa, Taku Oshima, Naotake Ogasawara
- Organizer
  第32回日本分子生物学会
- Place of Presentation
  横浜
- Year and Date
  2009-12-10
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] Distribution of RNA polymerase on the Bacillus subtilis genome.2008
- Author(s)
  Kusuya, Y., Oshima, T., Ishikawa, S., Kurokawa, K., Ogasawara, N.
- Organizer
  Functional Genomics of Microorganisms
- Place of Presentation
  Paris, France
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] ChIP- and ChAP-chip analysis : Methods of the analysis of a DNA-protein interaction in vivo.2008
- Author(s)
  Taku Oshima
- Organizer
  4^<th> International E.coli Alliance
- Place of Presentation
  Hinxton, UK
- Year and Date
  2008-09-25
- Data Source
  KAKENHI-PROJECT-20241045
[Presentation] Distribution of StpA across the E. coli genome and functional relationship with H-NS.2008
- Author(s)
  Uya, E., Oshima, T., Ogasawara, N.
- Organizer
  XX International Congress of Genetics
- Place of Presentation
  Berlin, Germany
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] N-terminal deletion mutant of YlqF, which is essential GTP-binding protein, displays dominant negative phenotype in Bacillus subtilis.2007
- Author(s)
  Matsuo, Y., Loh, P.C., Morimoto, T., Oshima, T., Ogasawara, N.
- Organizer
  14th International Conference on Bacilli
- Place of Presentation
  Pisa, Italy
- Data Source
  KAKENHI-PROJECT-17017026
[Presentation] 大腸菌Hha, YdgTタンパク質による外来性遺伝子の転写抑制
- Author(s)
  上田剛士、高橋弘喜、石川周、小笠原直毅、大島拓
- Organizer
  第７回日本ゲノム微生物学会年会
- Place of Presentation
  滋賀県長浜バイオ大学
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] バクテリアのサイレンシングの多様性と共通性
- Author(s)
  大島　拓
- Organizer
  第35回日本分子生物学会年会、ワークショップ：遺伝子サイレンシング：その進化的普遍性と多様性
- Place of Presentation
  福岡県福岡市
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] High resolution mapping of nucleoid protein binding sites on E. coli chromosome using DNaseI footprinting followed by high-throughput sequencing
- Author(s)
  Taku Oshima, Onuma Chumsakul, Shu Ishikawa
- Organizer
  The 9th Symposium
- Place of Presentation
  御殿場高原ホテル　（静岡県御殿場市）
- Year and Date
  2014-11-17 – 2014-11-21
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] Comparative analysis of H-NS binding profiles suggests a role of H-NS in sequence diversification of bacterial genome
- Author(s)
  大島　拓
- Organizer
  The Biology and Physics of Bacterial Genome Organization
- Place of Presentation
  ライデン　オランダ
- Invited
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] 大腸菌Hha, YdgTタンパク質による外来性遺伝子の転写抑制
- Author(s)
  上田剛士、高橋弘喜、石川周、小笠原直毅、大島拓
- Organizer
  第７回日本ゲノム微生物学会年会
- Place of Presentation
  滋賀県長浜バイオ大学
- Data Source
  KAKENHI-PROJECT-23241062
[Presentation] バクテリアのサイレンシングの多様性と共通性
- Author(s)
  大島　拓
- Organizer
  第35回日本分子生物学会年会、ワークショップ：遺伝子サイレンシング：その進化的普遍性と多様性
- Place of Presentation
  福岡県福岡市
- Data Source
  KAKENHI-PROJECT-23580114
[Presentation] 細菌ヒストン様タンパク質H-NSによるゲノム転写制御の機能解析
- Author(s)
  山本　兼良、山中　幸、大島　拓、石浜　明
- Organizer
  第37回日本分子生物学会年回
- Place of Presentation
  パシフィコ横浜　（神奈川県横浜市）
- Year and Date
  2014-11-25 – 2014-11-27
- Data Source
  KAKENHI-PROJECT-26450090
[Presentation] GeF-seqによる大腸菌核様体タンパク質の結合配列のゲノムワイド解析
- Author(s)
  大島　拓
- Organizer
  第11回　21世紀大腸菌研究会
- Place of Presentation
  ホテル大観　（岩手県盛岡市）
- Year and Date
  2014-06-05 – 2014-06-06
- Data Source
  KAKENHI-PROJECT-26450090

1. ISHIKAWA Shu (30359872)

# of Collaborated Projects: 4 results

# of Collaborated Products: 19 results
2. OGASAWARA Naotake (10110553)

# of Collaborated Projects: 3 results

# of Collaborated Products: 25 results
3. KUROKAWA Ken (20343246)

# of Collaborated Projects: 2 results

# of Collaborated Products: 4 results
4. TOBE Toru (70207596)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
5. AIBA Hirofumi (60211687)

# of Collaborated Projects: 2 results

# of Collaborated Products: 2 results
6. YAMAMOTO Kaneyoshi (40351580)

# of Collaborated Projects: 2 results

# of Collaborated Products: 6 results
7. 秋山昌広 (80273837)

# of Collaborated Projects: 2 results

# of Collaborated Products: 1 results
8. MORI Hirotada (90182203)

# of Collaborated Projects: 1 results

# of Collaborated Products: 5 results
9. KANAYA Shigehiko (90224584)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
10. SUZUKI Yutaka (40323646)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
11. TAKAHASHI Hiroki (60548460)

# of Collaborated Projects: 1 results

# of Collaborated Products: 5 results
12. MINAGAWA Shu (50445962)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
13. AIBA Hiroshi (20025662)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
14. KAMAGATA YOICHI (70356814)

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15. 小林和夫 (70324978)

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18. 鈴木志野 (10557002)

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19. 柿澤茂行 (10588669)

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24. Mori Hiroshi

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25. NARUMI Issay

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26. 伊豫田淳

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32. 加生和寿

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34. 石浜明

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OSHIMA Taku 大島 拓

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The role of nucleoid structure in bacterial transcriptional regulationPrincipal Investigator

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The analysis of the de-silencing mechanism in E. coliPrincipal Investigator

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マイクロアレイによる大腸菌転写ネットワークの解析Principal Investigator

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[Book] 高精度で結合領域を決定するGeF-seq、高精度で結合領域を決定するGeF-seq, 次世代シークエンス解析スタンダード:NGSのポテンシャルを活かしきるWET&DRY2014

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[Book] 細胞工学(タイリングチップを用いた細菌ゲノム機能研究の可能性, 25)2006

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[Journal Article] Reconsidering plasmid maintenance factors for computational plasmid design2019

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[Journal Article] Small RNA Esr41 inversely regulates expression of LEE and flagellar genes in enterohaemorrhagic Escherichia coli2018

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OSHIMA Taku 大島拓